T         Cs        steps     restart   freq      Pglob     Ptran     Prota     Ptgrw 
293.15     0.150    10000000         0      100000      .15       .05       .05       0.75
t_bcr     deltas    1/2/3               ntrials 
1.12      0.06       1.4       1         10       
corefile              tailfile          foldedfile                 fold_eligibility_file          
core_data.reg.150mM tail_data.mod.200mM folded_tail_data.mod.200mM fold_elig.dat  
P_swap tail_spec (0=all,1=H3,2=H4,3=H3,H4,4=H2A,5=H2B,6=H2AC)
.000     0
Fix_fold_conc? Target_Conc (H3_max=32,H4_max=20,H3,H4_max=52,H2A_max=16,H2B_max=18,H2AC_max=12,All_max=100) 
T     29
Apply boundary? force_c radius_coef update_freq(must be multiple) radius_start radius_finish
F               100              .9    10000                         42           35
Linker/Linker_Prob Max_Conc cons_dist cons_fk unbind_freq ll_elig_file	
.00                  15        3       2      0          ll_elig.dat
gen seed? seed
T	  10  
gen Twist? DNA_twist(phi_o)
T          0
Magnesium flag
0
Non-parental LH
1
ProbLH  deltaLH
.06 0.6
pre(Ec Ev LH/lDNA)
.66 1.0
[LH]  mode(0=assign by[LH],1=read LHbound.0.in, 2=assign by LHnum)  LHnum
0     1    50 
Verbose Output
F
Sim Annealing (0=none,1=linear anneal,2=trill)
0 0 0
Write PDB? write_pdb_freq
T 10000
Write bp_matrix? freq cutoff
T  1E6 2
